Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06732	0.851
27DAP/17DAP	1.08593	0.859
39DAP/27DAP	1.04185	1
41DAP/39DAP	1.52231	0.357
42DAP/41DAP	1.11889	0.954
43DAP/42DAP	0.96151	0.776
47DAP/43DAP	0.93732	0.754
52DAP/47DAP	1.16642	0.691
57DAP/52DAP	1.00782	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04359	0.638
17DAP/reference	1.00103	1
27DAP/reference	0.984	0.683
39DAP/reference	0.94313	0.188
41DAP/reference	1.04066	0.48
42DAP/reference	1.00435	1
43DAP/reference	0.97092	0.48
47DAP/reference	0.94719	0.098
52DAP/reference	0.91694	0.237
57DAP/reference	0.87677	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02222	0.923
27DAP/17DAP	0.99458	0.969
39DAP/27DAP	1.01345	0.799
41DAP/39DAP	1.11679	0.774
42DAP/41DAP	1.02176	1
43DAP/42DAP	0.9769	0.831
47DAP/43DAP	0.96299	0.701
52DAP/47DAP	1.01793	0.939
57DAP/52DAP	1.0139	0.997
57DAP/7DAP	1.27984	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0145	1
17DAP/reference	0.90831	0.082
27DAP/reference	0.91279	0.015
39DAP/reference	0.95961	0.109
41DAP/reference	0.97883	0.449
42DAP/reference	1.01464	0.686
43DAP/reference	1.02424	0.746
47DAP/reference	1.00771	1
52DAP/reference	0.93427	0.038
57DAP/reference	0.99504	0.67

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98026	0.706
17DAP/reference	0.99457	0.728
27DAP/reference	1.00293	0.79
39DAP/reference	1.02088	1
41DAP/reference	1.02222	0.781
42DAP/reference	1.06237	0.445
43DAP/reference	1.01017	0.892
47DAP/reference	1.00443	1
52DAP/reference	1.00005	1
57DAP/reference	1.00265	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98621	0.607
17DAP/reference	1.05914	0.585
27DAP/reference	0.88701	0.025
39DAP/reference	0.9205	0.063
41DAP/reference	0.98129	0.56
42DAP/reference	0.98012	0.816
43DAP/reference	0.93459	0.171
47DAP/reference	1.10992	0.239
52DAP/reference	0.88284	0.112
57DAP/reference	0.88093	0.143

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94196	1
26DAP/20DAP	0.90482	0.512
34DAP/26DAP	1.10378	0.819
51DAP/34DAP	0.80832	0.209
52DAP/51DAP	0.9334	1
53DAP/52DAP	1.06748	0.738
55DAP/53DAP	1.01542	1
57DAP/55DAP	0.93264	0.664
62DAP/57DAP	1.09825	0.515
68DAP/62DAP	0.85466	0.227
68DAP/14DAP	0.86564	0.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05027	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73634	0.251
Mature Green Tomato/Ripe Tomato	1.05861	0.814
Immature Eggplant/Mature Eggplant	2.02224	0.05
Ripe Pepper/Ripe Tomato	4.1598
Mature Eggplant/Ripe Tomato	2.08999	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97691	0.961
1-1-2/M82	1.05042	1
12-2/M82	1.03973	1
12-4/M82	1.00146	1
1-3/M82	0.89674	0.501
2-1-1/M82	1.2159
2-1/M82	1.27077	1
2-6/M82	0.98818	1
3-2/M82	1.01659	0.463
4-1-1/M82	1.05266	1
4-1/M82	0.89315	0.737
4-3-2/M82	0.90994	1
4-3/M82	0.92543	1
5-3/M82	1.08006	1
6-2/M82	1.07819	1
6-3/M82	0.89841	1
7-1/M82	0.90257
7-2/M82	0.98775	1
9-3-2/M82	0.95556	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.37952
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.14104
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.07734	0.699

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97512	1
DC3000/delta hrp 6h	1.10273	1
DC3000/delta hrp 12h	1.15726	1
DC3000/delta hrp 24h	0.92973	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.997	1
DC3000 delta B/DC3000 delta AB	0.9851	0.961

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24494	1
Exp 36h	1.46049	1
Exp 60h	1.15798	1

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.92134	1
Var 0h	1.09405	1
Var 12h I row2-row1	1.13745	0.272
Var 12h NI row2-row1	0.95445	0.82
Var 36h I row2-row1	1.02822	1
Var 36h NI row2-row1	0.8938	0.61
Var 60h I row2-row1	1.11368	0.562
Var 60h NI row2-row1	1.23678	0.904
Time course 0hI-0hNI	1.06102	0.799
Time course 12hI-12hNI	1.18862	0.347
Time course 36hI-36hNI	1.0134	1
Time course 60hI-60hNI	1.26983	0.009

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.7591	0.286
transgenic ySAMdc/azygous control (breaker)	1.22426	0.178
transgenic ySAMdc/azygous control (red)	1.07839	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00775	0.723

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89647	0.255

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07316	1
Manapal/WT (break)	0.83047	0.333
Manapal/WT (red)	1.24885	0.222